Zinc in PDB 6q5a: Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form

The structure of Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form, PDB code: 6q5a was solved by A.Palencia, C.Swale, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.49 / 1.55
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	90.360, 90.360, 238.660, 90.00, 90.00, 120.00
R / Rfree (%)	13.8 / 17.9

The structure of Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form (pdb code 6q5a). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form, PDB code: 6q5a:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:16.7 occ:1.00 O A:HOH705 2.1 13.3 1.0 NE2 A:HIS88 2.1 13.7 1.0 NE2 A:HIS445 2.2 11.8 1.0 O A:HOH812 2.2 18.4 1.0 OD2 A:ASP202 2.2 15.1 1.0 OD2 A:ASP87 2.3 15.3 1.0 CD2 A:HIS88 3.0 12.4 1.0 CG A:ASP202 3.0 13.4 1.0 CE1 A:HIS445 3.1 13.8 1.0 CD2 A:HIS445 3.2 12.4 1.0 CE1 A:HIS88 3.2 12.7 1.0 CG A:ASP87 3.2 13.4 1.0 OD1 A:ASP202 3.2 12.7 1.0 ZN A:ZN502 3.4 16.0 1.0 O A:HOH986 3.5 32.0 1.0 OD1 A:ASP87 3.6 15.4 1.0 O A:HOH900 3.8 18.2 1.0 O A:HOH988 4.0 39.8 1.0 NE2 A:HIS423 4.1 15.7 1.0 ND1 A:HIS445 4.2 12.1 1.0 CG A:HIS88 4.2 12.2 1.0 CG A:HIS445 4.3 12.5 1.0 ND1 A:HIS88 4.3 13.1 1.0 O A:HOH770 4.3 15.5 1.0 NE2 A:HIS83 4.3 12.7 1.0 CE1 A:HIS83 4.4 11.8 1.0 CB A:ASP202 4.5 13.4 1.0 CB A:ASP87 4.6 14.1 1.0 CD2 A:HIS423 5.0 14.0 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Cryptosporidium Hominis CPSF3 in the Apo Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn502 b:16.0 occ:1.00 O A:HOH705 2.0 13.3 1.0 ND1 A:HIS85 2.2 14.3 1.0 NE2 A:HIS181 2.2 13.1 1.0 NE2 A:HIS83 2.2 12.7 1.0 O A:HOH900 2.2 18.2 1.0 OD2 A:ASP202 2.4 15.1 1.0 CE1 A:HIS85 3.0 14.0 1.0 CE1 A:HIS181 3.1 12.6 1.0 CD2 A:HIS83 3.2 12.5 1.0 CD2 A:HIS181 3.2 12.7 1.0 CG A:HIS85 3.2 13.1 1.0 CE1 A:HIS83 3.2 11.8 1.0 ZN A:ZN501 3.4 16.7 1.0 CG A:ASP202 3.4 13.4 1.0 CB A:HIS85 3.6 13.0 1.0 CB A:ASP202 3.8 13.4 1.0 O A:HOH812 3.8 18.4 1.0 NE2 A:HIS88 4.1 13.7 1.0 CD2 A:HIS88 4.1 12.4 1.0 NE2 A:HIS85 4.2 14.3 1.0 O A:HOH798 4.2 20.4 1.0 ND1 A:HIS181 4.2 11.8 1.0 CG A:HIS181 4.3 11.8 1.0 CD2 A:HIS85 4.3 13.1 1.0 CG A:HIS83 4.3 13.7 1.0 O A:HOH988 4.3 39.8 1.0 ND1 A:HIS83 4.3 13.6 1.0 NE2 A:HIS423 4.4 15.7 1.0 OD1 A:ASP87 4.6 15.4 1.0 OD1 A:ASP202 4.6 12.7 1.0 O A:HOH976 4.9 28.8 1.0 OD2 A:ASP87 4.9 15.3 1.0

C.Swale, A.Bougdour, A.Gnahoui-David, J.Tottey, S.Georgeault, F.Laurent, A.Palencia, M.A.Hakimi. Metal-Captured Inhibition of Pre-Mrna Processing Activity By CPSF3 Controlscryptosporidiuminfection. Sci Transl Med V. 11 2019.
ISSN: ESSN 1946-6242
PubMed: 31694928
DOI: 10.1126/SCITRANSLMED.AAX7161